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Melon (Cucumis melo L.) is an economically important horticultural crop with abundant morphological and genetic variability. Complex genetic variations exist even among melon varieties and remain unclear to date. Therefore, unraveling the genetic variability among the three different melon varieties, muskmelon (C. melo subsp. melo), makuwa (C. melo L. var. makuwa), and cantaloupes (C. melo subsp. melo var. cantalupensis), could provide a basis for evolutionary research. In this study, we attempted a systematic approach with genotyping-by-sequencing (GBS)-derived single nucleotide polymorphisms (SNPs) to reveal the genetic structure and diversity, haplotype differences, and marker-based varieties differentiation. A total of 6406 GBS-derived SNPs were selected for the diversity analysis, in which the muskmelon varieties showed higher heterozygote SNPs. Linkage disequilibrium (LD) decay varied significantly among the three melon varieties, in which more rapid LD decay was observed in muskmelon (r2 = 0.25) varieties. The Bayesian phylogenetic tree provided the intraspecific relationships among the three melon varieties that formed, as expected, individual clusters exhibiting the greatest genetic distance based on the posterior probability. The haplotype analysis also supported the phylogeny result by generating three major networks for 48 haplotypes. Further investigation for varieties discrimination allowed us to detect a total of 52 SNP markers that discriminated muskmelon from makuwa varieties, of which two SNPs were converted into cleaved amplified polymorphic sequence markers for practical use. In addition to these markers, the genome-wide association study identified two SNPs located in the genes on chromosome 6, which were significantly associated with the phenotypic traits of melon seed. This study demonstrated that a systematic approach using GBS-derived SNPs could serve to efficiently classify and manage the melon varieties in the genebank.
Do Hyun; Raveendar Sebastin; Gi-An Lee; Kyung Lee; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Man-Jung Kang; Seung Lee; Ik Jang; Na-Young Ro; Gyu-Taek Cho. Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing. International Journal of Molecular Sciences 2021, 22, 6722 .
AMA StyleDo Hyun, Raveendar Sebastin, Gi-An Lee, Kyung Lee, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Man-Jung Kang, Seung Lee, Ik Jang, Na-Young Ro, Gyu-Taek Cho. Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing. International Journal of Molecular Sciences. 2021; 22 (13):6722.
Chicago/Turabian StyleDo Hyun; Raveendar Sebastin; Gi-An Lee; Kyung Lee; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Man-Jung Kang; Seung Lee; Ik Jang; Na-Young Ro; Gyu-Taek Cho. 2021. "Genome-Wide SNP Markers for Genotypic and Phenotypic Differentiation of Melon (Cucumis melo L.) Varieties Using Genotyping-by-Sequencing." International Journal of Molecular Sciences 22, no. 13: 6722.
Potato (Solanum tuberosum L.) is an important staple food and economic crop in many countries. It is of critical importance to understand the genetic diversity and population structure for effective collection, conservation, and utilization of potato germplasm. Thus, the objective of the present study was to investigate the genetic diversity and population structure of potato germplasm conserved in the National Agrobiodiversity Center (NAC) of South Korea to provide basic data for future preservation and breeding of potato genetic resources. A total of 24 simple sequence repeat (SSR) markers were used to assess the genetic diversity and population structure of 482 potato accessions. A total of 257 alleles were detected, with an average of 10.71 alleles per locus. Analysis of molecular variance showed that 97% of allelic diversity was attributed to individual accessions within the population, while only 3% was distributed among populations. Results of genetic structure analysis based on STRUCTURE and discriminant analysis of principal components revealed that 482 potato accessions could be divided into two main subpopulations. Accessions of subpopulation 1 mainly belonged to cultivars and breeding lines. Accessions of subpopulations 2 basically corresponded to wild relatives of potatoes. Results of this study provide useful information for potato improvement and conservation programs, although further studies are needed for a more accurate evaluation of genetic diversity and phenotypic traits of potatoes.
Kyung-Jun Lee; Raveendar Sebastin; Gyu-Taek Cho; Munsup Yoon; Gi-An Lee; Do-Yoon Hyun. Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation. Plants 2021, 10, 752 .
AMA StyleKyung-Jun Lee, Raveendar Sebastin, Gyu-Taek Cho, Munsup Yoon, Gi-An Lee, Do-Yoon Hyun. Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation. Plants. 2021; 10 (4):752.
Chicago/Turabian StyleKyung-Jun Lee; Raveendar Sebastin; Gyu-Taek Cho; Munsup Yoon; Gi-An Lee; Do-Yoon Hyun. 2021. "Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and Conservation." Plants 10, no. 4: 752.
Tea has received attention due to its phytochemicals. For the direct use of tea germplasm in breeding programs, a core collection that retains the genetic diversity and various phytochemicals in tea is needed. In this study, we evaluated the content of eight phytochemicals over two years and the genetic diversity through 33 SSR (simple sequence repeats) markers for 462 tea accessions (entire collection, ENC) and developed a target-oriented core collection (TOCC). Significant phytochemical variation was observed in the ENC between genotypes and years. The genetic diversity of ENC showed high levels of molecular variability. These results were incorporated into developing TOCCs. The TOCC showed a representation of the ENC, where the mean difference percentage, the variance difference percentage, the variable rate of coefficient of variance percentage, and the coincidence rate of range percentage were 7.88, 39.33, 120.79, and 97.43, respectively. The Shannon’s diversity index (I) and Nei’s gene diversity (H) of TOCC were higher than those of ENC. Furthermore, the accessions in TOCC were shown to be selected proportionally, thus accurately reflecting the distribution of the overall accessions for each phytochemical. This is the first report describing the development of a TOCC retaining the diversity of phytochemicals in tea germplasm. This TOCC will facilitate the identification of the genetic determinants of trait variability and the effective utilization of phytochemical diversity in crop improvement programs.
Do Yoon Hyun; Gwang-Yeon Gi; Raveendar Sebastin; Gyu-Taek Cho; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Dong-Mo Son; Kyung Jun Lee. Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm. Agronomy 2020, 10, 1667 .
AMA StyleDo Yoon Hyun, Gwang-Yeon Gi, Raveendar Sebastin, Gyu-Taek Cho, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Dong-Mo Son, Kyung Jun Lee. Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm. Agronomy. 2020; 10 (11):1667.
Chicago/Turabian StyleDo Yoon Hyun; Gwang-Yeon Gi; Raveendar Sebastin; Gyu-Taek Cho; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Dong-Mo Son; Kyung Jun Lee. 2020. "Utilization of Phytochemical and Molecular Diversity to Develop a Target-Oriented Core Collection in Tea Germplasm." Agronomy 10, no. 11: 1667.
To improve crops, it is important to secure plant genetic source material and evaluate the genetic diversity. Ginseng (Panax ginseng C.A. Meyer) has long been used as a medicinal herb in Korea and China. Since ginseng originated from wild ginseng with low genetic diversity, it is also expected to have low genetic diversity. In this study, the genetic diversity of 451 ginseng accessions conserved in the National Agrobiodiversity Center (NAC) at Korea was analyzed using 33 SSR markers. Another objective was to establish a strategy for NAC to manage ginseng germplasm based on these results. The 451 accessions were collected from 22 cities in six provinces in South Korea. Among the 451 ginseng accessions, 390 (86.5%) and 61 (13.5%) were landraces and breeding lines, respectively. In the STRUCTURE results for the accessions, there was no relationship between assigned genotypes and collection areas, but there was a population genetic structure. In addition, genetic differentiation within populations of each analysis was low, indicating that the ginseng accessions conserved at NAC are extensively dispersed throughout the collection areas. The results of this study suggest that NAC should increase the genetic diversity of ginseng accessions for breeding programs, and alternatives are needed for securing ginseng genetic resources.
Kyung Jun Lee; Raveendar Sebastin; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Gyu-Taek Cho; Manjung Kang; Do Yoon Hyun. Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type. Agronomy 2020, 10, 1643 .
AMA StyleKyung Jun Lee, Raveendar Sebastin, Seong-Hoon Kim, Eunae Yoo, Sookyeong Lee, Gyu-Taek Cho, Manjung Kang, Do Yoon Hyun. Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type. Agronomy. 2020; 10 (11):1643.
Chicago/Turabian StyleKyung Jun Lee; Raveendar Sebastin; Seong-Hoon Kim; Eunae Yoo; Sookyeong Lee; Gyu-Taek Cho; Manjung Kang; Do Yoon Hyun. 2020. "Genetic Composition of Korean Ginseng Germplasm by Collection Area and Resource Type." Agronomy 10, no. 11: 1643.
Ginseng (Panax ginseng C.A. Meyer), commonly known as Korean or Asian ginseng, is a perennial herb native to Korea and China. There has been limited research effort to analyze the genetic diversity and population structure of ginseng germplasm because of its growth habits. In the present study, genetic diversity and population structure of ginseng germplasm conserved in the National Agrobiodiversity Center (NAC) of South Korea were analyzed to provide basic data for future preservation and breeding of ginseng genetic resources. Seventeen simple sequence repeat (SSR) markers were used to assess the genetic diversity and population structure of 1109 ginseng accessions. Among 1109 ginseng accessions, 1042 (94.0%) accessions were landraces and 66 (6.0%) accessions were breeding lines (61 accessions, 5.5%) or cultivars (5 accessions, 0.5%). SSR markers revealed 56 different alleles with an average of 3.29 alleles per locus. The average gene diversity was 0.49. Analysis of molecular variance showed that 91% of allelic diversity was attributed to individual accessions within clusters while only 9% was distributed among clusters. Using discriminant analysis of principal components, 12 clusters were detected in 1109 ginseng accessions. The results of this study provide molecular evidence for the narrow genetic base of ginseng germplasm in NAC. For the broad understanding and efficient use of ginseng germplasm, it is necessary to analyze functional factors and to evaluate morphological traits.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Gyu-Taek Cho; Do Yoon Hyun. Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation. Agronomy 2020, 10, 68 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Gyu-Taek Cho, Do Yoon Hyun. Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation. Agronomy. 2020; 10 (1):68.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Gyu-Taek Cho; Do Yoon Hyun. 2020. "Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation." Agronomy 10, no. 1: 68.
Sweet potato (Ipomoea batatas L. Lam) is an important food crop widely cultivated in the world. In this study, nine chloroplast simple sequence repeat (cpSSR) markers were used to analyze the genetic diversity and relationships of 558 sweet potato accessions in the germplasm collection of the National Agrobiodiversity Center (NAC). Eight of the nine cpSSR showed polymorphisms, while Ibcp31 did not. The number of alleles per locus ranged from two to four. In general, the Shannon index for each cpSSR ranged from 0.280 to 1.123 and the diversity indices and unbiased diversity ranged from 0.148 to 0.626, and 0.210 to 0.627, respectively. Results of the median-joining network showed 33 chlorotypes in 558 sweet potato accessions. In factor analysis, 558 sweet potato accessions were divided into four clusters, with clusters I and II composed only of the sweet potato accessions from Korea, Japan, Taiwan, and the USA. The results of this study confirmed that the genetic diversity of the female parents of sweet potato accessions conserved at the NAC is low and therefore more sweet potato accessions need to be collected. These results will help to establish an efficient management plan for sweet potato genetic germplasms at the NAC.
Kyung Jun Lee; Gi-An Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Gyu-Taek Cho; Do Yoon Hyun. Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers. Agronomy 2019, 9, 752 .
AMA StyleKyung Jun Lee, Gi-An Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Gyu-Taek Cho, Do Yoon Hyun. Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers. Agronomy. 2019; 9 (11):752.
Chicago/Turabian StyleKyung Jun Lee; Gi-An Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Genetic Diversity of Sweet Potato (Ipomoea batatas L. Lam) Germplasms Collected Worldwide Using Chloroplast SSR Markers." Agronomy 9, no. 11: 752.
Watermelon is an economically important vegetable fruit worldwide. The objective of this study was to conduct a genetic diversity of 68 watermelon accessions using single nucleotide polymorphisms (SNPs). Genotyping by sequencing (GBS) was used to discover SNPs and assess genetic diversity and population structure using STRUCTURE and discriminant analysis of principal components (DAPC) in watermelon accessions. Two groups of watermelons were used: 1) highly utilized 41 watermelon accessions at the National Agrobiodiversity Center (NAC) at the Rural Development Administration in South Korea; and 2) 27 Korean commercial watermelons. Results revealed the presence of four clusters within the populations differentiated principally based on seed companies. In addition, there was higher genetic differentiation among commercial watermelons of each company. It is hypothesized that the results obtained from this study would contribute towards the expansion of this crop as well as providing data about genetic diversity, which would be useful for the preservation of genetic resources or for future breeding programs.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm. Genes 2019, 10, 822 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Seong-Hoon Kim, Gyu-Taek Cho, Do Yoon Hyun. Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm. Genes. 2019; 10 (10):822.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Genetic Diversity Assessed by Genotyping by Sequencing (GBS) in Watermelon Germplasm." Genes 10, no. 10: 822.
Tea (Camellia sinensis (L.) O. Kuntze) is cultivated in many developing Asian, African, and South American countries, and is the most widely consumed beverage in the world. It is of critical importance to understand the genetic diversity and population structure of tea germplasm for effective collection, conservation, and utilization. In this study, 410 tea accessions collected from South Korea were analyzed using 21 simple sequence repeat (SSR) markers. Among 410 tea accessions, 85.4% (350 accessions) were collected from Jeollanam-do. A total of 286 alleles were observed, and the genetic diversity and evenness were estimated to be on average 0.79 and 0.61, respectively, across all the tested samples. Using discriminant analysis of principal components, four clusters were detected in 410 tea accessions. Among them, cluster 1 showed a higher frequency of rare alleles (less than 1%). Using the calculation of the index of association and rbaD value, each cluster showed a clonal mode of reproduction. The result of analysis of molecular variance (AMOVA) showed that most of the variation observed was within populations (99%) rather than among populations (1%). The present study revealed the presence of lower diversity and simpler population structure in Korean tea germplasms. Consequently, more attention should be focused on collecting and conserving the new tea individuals to broaden genetic variation of new cultivars in future breeding of the tea plant.
Kyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank. Forests 2019, 10, 780 .
AMA StyleKyung Jun Lee, Jung-Ro Lee, Raveendar Sebastin, Myoung-Jae Shin, Seong-Hoon Kim, Gyu-Taek Cho, Do Yoon Hyun. Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank. Forests. 2019; 10 (9):780.
Chicago/Turabian StyleKyung Jun Lee; Jung-Ro Lee; Raveendar Sebastin; Myoung-Jae Shin; Seong-Hoon Kim; Gyu-Taek Cho; Do Yoon Hyun. 2019. "Assessment of Genetic Diversity of Tea Germplasm for Its Management and Sustainable Use in Korea Genebank." Forests 10, no. 9: 780.
The wild species are considered as primary and secondary genepools for the world’s most important food crops. Here, we sequenced the complete chloroplast (cp) genome sequence of an American wild licorice, Glycyrrhiza lepidota for the first time to investigate their phylogenetic relationship among inverted-repeat-lacking clade (IRLC) legumes. The total length of the chloroplast genome is 127,939 bp, with 34.2% overall GC content. The chloroplast genome harbors 110 known genes, including 76 protein-coding genes, four ribosomal RNA genes, and 30 tRNA genes. Similar to other closely related plastomes, rpl22 and rps16 are absent. A total of 464 cp microsatellites (cpSSRs) were analyzed in the G. lepidota. The majority of the SSRs in this cp genome are penta-nucleotides (61.6%). Locally collinear blocks (LCBs) identified between the Glycyrrhiza glabra and G. lepidota cp genomes were showed that they were well conserved with respect to gene organization and order. Moreover, the phylogenetic analysis indicates that G. lepidota is closely related to its confamilial counterparts than to the other taxa of the IRLC legumes.
Sebastin Raveendar; Yoon-Sup So; Kyung Jun Lee; Dong-Jin Lee; Jwakyung Sung; Jong-Wook Chung. The complete chloroplast genome sequence of Glycyrrhiza lepidota (Nutt.) Pursh - An American wild licorice. Journal of Crop Science and Biotechnology 2017, 20, 295 -303.
AMA StyleSebastin Raveendar, Yoon-Sup So, Kyung Jun Lee, Dong-Jin Lee, Jwakyung Sung, Jong-Wook Chung. The complete chloroplast genome sequence of Glycyrrhiza lepidota (Nutt.) Pursh - An American wild licorice. Journal of Crop Science and Biotechnology. 2017; 20 (4):295-303.
Chicago/Turabian StyleSebastin Raveendar; Yoon-Sup So; Kyung Jun Lee; Dong-Jin Lee; Jwakyung Sung; Jong-Wook Chung. 2017. "The complete chloroplast genome sequence of Glycyrrhiza lepidota (Nutt.) Pursh - An American wild licorice." Journal of Crop Science and Biotechnology 20, no. 4: 295-303.
The vetch (Vicia sativa) is one of the most important annual forage legumes globally due to its multiple uses and high nutritional content. Despite these agronomical benefits, many drawbacks, including cyano-alanine toxin, has reduced the agronomic value of vetch varieties. Here, we used 454 technology to sequence the two V. sativa subspecies (ssp. sativa and ssp. nigra) to enrich functional information and genetic marker resources for the vetch research community. A total of 86,532 and 47,103 reads produced 35,202 and 18,808 unigenes with average lengths of 735 and 601 bp for V. sativa sativa and V. sativa nigra, respectively. Gene Ontology annotations and the cluster of orthologous gene classes were used to annotate the function of the Vicia transcriptomes. The Vicia transcriptome sequences were then mined for simple sequence repeat (SSR) and single nucleotide polymorphism (SNP) markers. About 13% and 3% of the Vicia unigenes contained the putative SSR and SNP sequences, respectively. Among those SSRs, 100 were chosen for the validation and the polymorphism test using the Vicia germplasm set. Thus, our approach takes advantage of the utility of transcriptomic data to expedite a vetch breeding program.
Tae-Sung Kim; Sebastin Raveendar; Sundan Suresh; Gi-An Lee; Jung-Ro Lee; Joon-Hyeong Cho; Sok-Young Lee; Kyung-Ho Ma; Gyu-Taek Cho; Jong-Wook Chung. Transcriptome Analysis of Two Vicia sativa Subspecies: Mining Molecular Markers to Enhance Genomic Resources for Vetch Improvement. Genes 2015, 6, 1164 -1182.
AMA StyleTae-Sung Kim, Sebastin Raveendar, Sundan Suresh, Gi-An Lee, Jung-Ro Lee, Joon-Hyeong Cho, Sok-Young Lee, Kyung-Ho Ma, Gyu-Taek Cho, Jong-Wook Chung. Transcriptome Analysis of Two Vicia sativa Subspecies: Mining Molecular Markers to Enhance Genomic Resources for Vetch Improvement. Genes. 2015; 6 (4):1164-1182.
Chicago/Turabian StyleTae-Sung Kim; Sebastin Raveendar; Sundan Suresh; Gi-An Lee; Jung-Ro Lee; Joon-Hyeong Cho; Sok-Young Lee; Kyung-Ho Ma; Gyu-Taek Cho; Jong-Wook Chung. 2015. "Transcriptome Analysis of Two Vicia sativa Subspecies: Mining Molecular Markers to Enhance Genomic Resources for Vetch Improvement." Genes 6, no. 4: 1164-1182.
Chloroplast (cp) genome sequences provide a valuable source for DNA barcoding. Molecular phylogenetic studies have concentrated on DNA sequencing of conserved gene loci. However, this approach is time consuming and more difficult to implement when gene organization differs among species. Here we report the complete re-sequencing of the cp genome of Capsicum pepper (Capsicum annuum var. glabriusculum) using the Illumina platform. The total length of the cp genome is 156,817 bp with a 37.7% overall GC content. A pair of inverted repeats (IRs) of 50,284 bp were separated by a small single copy (SSC; 18,948 bp) and a large single copy (LSC; 87,446 bp). The number of cp genes in C. annuum var. glabriusculum is the same as that in other Capsicum species. Variations in the lengths of LSC; SSC and IR regions were the main contributors to the size variation in the cp genome of this species. A total of 125 simple sequence repeat (SSR) and 48 insertions or deletions variants were found by sequence alignment of Capsicum cp genome. These findings provide a foundation for further investigation of cp genome evolution in Capsicum and other higher plants.
Sebastin Raveendar; Young-Wang Na; Jung-Ro Lee; Donghwan Shim; Kyung-Ho Ma; Sok-Young Lee; Jong-Wook Chung. The Complete Chloroplast Genome of Capsicum annuum var. glabriusculum Using Illumina Sequencing. Molecules 2015, 20, 13080 -13088.
AMA StyleSebastin Raveendar, Young-Wang Na, Jung-Ro Lee, Donghwan Shim, Kyung-Ho Ma, Sok-Young Lee, Jong-Wook Chung. The Complete Chloroplast Genome of Capsicum annuum var. glabriusculum Using Illumina Sequencing. Molecules. 2015; 20 (7):13080-13088.
Chicago/Turabian StyleSebastin Raveendar; Young-Wang Na; Jung-Ro Lee; Donghwan Shim; Kyung-Ho Ma; Sok-Young Lee; Jong-Wook Chung. 2015. "The Complete Chloroplast Genome of Capsicum annuum var. glabriusculum Using Illumina Sequencing." Molecules 20, no. 7: 13080-13088.
The temperate and herbaceous genus Vicia L. is a member of the legume tribe Fabeae of the subfamily Papilionoideae. The genus Vicia comprises 166 annual or perennial species distributed mainly in Europe, Asia, and North America, but also extending to the temperate regions of South America and tropical Africa. The use of simple sequence repeat (SSR) markers for Vicia species has not been investigated as extensively as for other crop species. In this study, we assessed the potential for cross-species amplification of cDNA microsatellite markers developed from common vetch (Vicia sativa subsp. sativa). For cross-species amplification of the SSRs, amplification was carried out with genomic DNA isolated from two to eight accessions of 22 different Vicia species. For individual species or subspecies, the transferability rates ranged from 33% for V. ervilia to 82% for V. sativa subsp. nigra with an average rate of 52.0%. Because the rate of successful SSR marker amplification generally correlates with genetic distance, these SSR markers are potentially useful for analyzing genetic relationships between or within Vicia species.
Sebastin Raveendar; Gi-An Lee; Young-Ah Jeon; Yun Jeong Lee; Jung-Ro Lee; Gyu-Taek Cho; Joon-Hyeong Cho; Jong-Hyun Park; Kyung-Ho Ma; Jong-Wook Chung. Cross-Amplification of Vicia sativa subsp. sativa Microsatellites across 22 Other Vicia Species. Molecules 2015, 20, 1543 -1550.
AMA StyleSebastin Raveendar, Gi-An Lee, Young-Ah Jeon, Yun Jeong Lee, Jung-Ro Lee, Gyu-Taek Cho, Joon-Hyeong Cho, Jong-Hyun Park, Kyung-Ho Ma, Jong-Wook Chung. Cross-Amplification of Vicia sativa subsp. sativa Microsatellites across 22 Other Vicia Species. Molecules. 2015; 20 (1):1543-1550.
Chicago/Turabian StyleSebastin Raveendar; Gi-An Lee; Young-Ah Jeon; Yun Jeong Lee; Jung-Ro Lee; Gyu-Taek Cho; Joon-Hyeong Cho; Jong-Hyun Park; Kyung-Ho Ma; Jong-Wook Chung. 2015. "Cross-Amplification of Vicia sativa subsp. sativa Microsatellites across 22 Other Vicia Species." Molecules 20, no. 1: 1543-1550.
© TÜBİTAK doi:10.3906/tar-1409-3 Transcriptome characterization and large-scale identification of SSR/SNP markers in symbiotic nitrogen fixation crop faba bean (Vicia faba L.
Sundan Suresh; Tae-Sung Kim; Sebastin Raveendar; Joon-Hyeong Cho; Jung Yoon Yi; Myung Chul Lee; Sok-Young Lee; Hyung-Jin Baek; Gyu-Taek Cho; Jong-Wook Chung. Transcriptome characterization and large-scale identification of SSR/SNPmarkers in symbiotic nitrogen fixation crop faba bean (Vicia faba L.). TURKISH JOURNAL OF AGRICULTURE AND FORESTRY 2015, 39, 459 -469.
AMA StyleSundan Suresh, Tae-Sung Kim, Sebastin Raveendar, Joon-Hyeong Cho, Jung Yoon Yi, Myung Chul Lee, Sok-Young Lee, Hyung-Jin Baek, Gyu-Taek Cho, Jong-Wook Chung. Transcriptome characterization and large-scale identification of SSR/SNPmarkers in symbiotic nitrogen fixation crop faba bean (Vicia faba L.). TURKISH JOURNAL OF AGRICULTURE AND FORESTRY. 2015; 39 ():459-469.
Chicago/Turabian StyleSundan Suresh; Tae-Sung Kim; Sebastin Raveendar; Joon-Hyeong Cho; Jung Yoon Yi; Myung Chul Lee; Sok-Young Lee; Hyung-Jin Baek; Gyu-Taek Cho; Jong-Wook Chung. 2015. "Transcriptome characterization and large-scale identification of SSR/SNPmarkers in symbiotic nitrogen fixation crop faba bean (Vicia faba L.)." TURKISH JOURNAL OF AGRICULTURE AND FORESTRY 39, no. : 459-469.
The rice leaffolder (RLF), Cnaphalocrocis medinalis is an important pest of rice that causes severe damage in many areas of the world. The plants were transformed with fully modified (plant codon optimized) synthetic Cry1C coding sequences as well as with the hpt and gus genes, coding for hygromycin phosphotransferase and β-glucuronidase, respectively. Cry1C sequences placed under the control of doubled 35S promoter plus the AMV leader sequence, and hpt and gus genes driven by cauliflower mosaic virus 35S promoter, were used in this study. Embryogenic calli after cocultivation with Agrobacterium were selected on the medium containing hygromycin B. A total of 67 hygromycin-resistant plants were regenerated. PCR and Southern blot analyses of primary transformants revealed the stable integration of Cry1C coding sequences into the rice genome with predominant single copy integration. R1 progeny plants disclosed a monogenic pattern (3:1) of transgene segregation as confirmed by molecular analyses. These transgenic lines were highly resistant to rice leaffolder (RLF), Cnaphalocrocis medinalis as revealed by insect bioassay.
S. Ignacimuthu; S. Raveendar. Agrobacterium mediated transformation of indica rice (Oryza sativa L.) for insect resistance. Euphytica 2010, 179, 277 -286.
AMA StyleS. Ignacimuthu, S. Raveendar. Agrobacterium mediated transformation of indica rice (Oryza sativa L.) for insect resistance. Euphytica. 2010; 179 (2):277-286.
Chicago/Turabian StyleS. Ignacimuthu; S. Raveendar. 2010. "Agrobacterium mediated transformation of indica rice (Oryza sativa L.) for insect resistance." Euphytica 179, no. 2: 277-286.